Mechanical properties of symmetric and asymmetric DNA A-tracts: implications for looping and nucleosome positioning

Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F61989592%3A15310%2F14%3A33152187" target="_blank" >RIV/61989592:15310/14:33152187 - isvavai.cz</a>
Alternative codes found
RIV/68081707:_____/14:00430484 RIV/61388963:_____/14:00430484 RIV/00216224:14740/14:00076810
Result on the web
<a href="http://nar.oxfordjournals.org/content/42/11/7383.full.pdf+html" target="_blank" >http://nar.oxfordjournals.org/content/42/11/7383.full.pdf+html</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1093/nar/gku338" target="_blank" >10.1093/nar/gku338</a>

Result language
angličtina
Original language name
Mechanical properties of symmetric and asymmetric DNA A-tracts: implications for looping and nucleosome positioning
Original language description
A-tracts are functionally important DNA sequences which induce helix bending and have peculiar structural properties. While A-tract structure has been qualitatively well characterized, their mechanical properties remain controversial. A-tracts appear structurally rigid and resist nucleosome formation, but seem flexible in DNA looping. In this work, we investigate mechanical properties of symmetric A(n)T(n) and asymmetric A(2n) tracts for n = 3, 4, 5 using two types of coarse-grained models. The first model represents DNA as an ensemble of interacting rigid bases with non-local quadratic deformation energy, the second one treats DNA as an anisotropically bendable and twistable elastic rod. Parameters for both models are inferred from microsecond long, atomic-resolution molecular dynamics simulations. We find that asymmetric A-tracts are more rigid than the control G/C-rich sequence in localized distortions relevant for nucleosome formation, but are more flexible in global bending and tw
Czech name
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Czech description
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Type
J<sub>x</sub> - Unclassified - Peer-reviewed scientific article (Jimp, Jsc and Jost)
CEP classification
BO - Biophysics
OECD FORD branch
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Project
Result was created during the realization of more than one project. More information in the Projects tab.
Continuities
P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Publication year
2014
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

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